Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 268 of 322
Found at i:88784888 original size:48 final size:49
Alignment explanation
Indices: 88784777--88784902 Score: 164
Period size: 48 Copynumber: 2.6 Consensus size: 49
88784767 AAGGCTGACG
* ** * *
88784777 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTACCGATG
1 CCATGTCCCAGACATGGTCTTACACT-GATAGCACATATACGTACCGATA
* * *
88784827 CCATGTCCTAGACATGGTCTTACACTGATAGCTC-TATACGTACTGATA
1 CCATGTCCCAGACATGGTCTTACACTGATAGCACATATACGTACCGATA
88784875 CCATGTCCCAGACATGGTCTTACACTGA
1 CCATGTCCCAGACATGGTCTTACACTGA
88784903 CACATCTCAT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
48 38 0.57
49 4 0.06
50 25 0.37
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (49 bp):
CCATGTCCCAGACATGGTCTTACACTGATAGCACATATACGTACCGATA
Found at i:88784974 original size:46 final size:46
Alignment explanation
Indices: 88784876--88785084 Score: 210
Period size: 46 Copynumber: 4.5 Consensus size: 46
88784866 GTACTGATAC
* * *
88784876 CATGTCCCAGACATGGTCTTACACTGACACATC-TCAT-A-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTC-TCATCTTGAGGCCGATG
* *
88784921 TATGTCCCAGACATGTCTTACACTGGCT-TACATCTTGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATCTTGAGGCCGATG
* ** * *
88784967 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTTGAGGCCGATG
** *
88785013 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTTGAGGCCGATG
* *
88785061 CATGTCCTAGACATGTCTGACACT
1 CATGTCCCAGACATGTCTTACACT
88785085 AGCACACAAA
Statistics
Matches: 137, Mismatches: 20, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 15 0.11
45 14 0.10
46 54 0.39
47 28 0.20
48 24 0.18
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTTGAGGCCGATG
Found at i:88785044 original size:48 final size:48
Alignment explanation
Indices: 88784678--88785047 Score: 275
Period size: 46 Copynumber: 7.8 Consensus size: 48
88784668 TATAATGCCA
*
88784678 ATGCCATGTCCCAGACATCGTCTTACACTGGCTCATCCAT-T-AA-G-TCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CATCTCAATGCT-G
* * * * * ** *
88784725 ATGCCATGTCCCAAATATGGTCTTACATTGACTATCAAAATCAAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATCTCAATGCTG
* * * ** * *
88784774 ACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATCTCAATGCTG
* * * *
88784824 ATGCCATGTCCTAGACATGGTCTTACACTGATAGCTCT-AT-AC-GTACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTG---GCTCTCATCTCAATGCTG
* * * *
88784872 ATACCATGTCCCAGACATGGTCTTACACT-G-ACACATCTC-ATAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAT-GCTG
* ** *
88784918 ATG-TATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTTGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATCTCAATGCTG
*
88784964 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATGCTG
88785010 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
88785048 AATGTGGCCG
Statistics
Matches: 257, Mismatches: 46, Indels: 39
0.75 0.13 0.11
Matches are distributed among these distances:
43 1 0.00
44 13 0.05
45 17 0.07
46 56 0.22
47 45 0.18
48 52 0.20
49 31 0.12
50 36 0.14
51 1 0.00
53 5 0.02
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATGCTG
Found at i:88785061 original size:48 final size:47
Alignment explanation
Indices: 88784673--88785084 Score: 255
Period size: 47 Copynumber: 8.7 Consensus size: 47
88784663 TAGGGTATAA
* *
88784673 TGCCAATGCCATGTCCCAGACATCGTCTTACACTGGCTCATCCATTAA-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CA-TAATG
* * * * * *
88784722 T--CGATGCCATGTCCCAAATATGGTCTTACATTGACTATCAAAATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT---G
* * * *
88784770 -GCTGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--G
* * *
88784819 TACCGATGCCATGTCCTAGACATGGTCTTACACTGATAGCTCT-AT-ACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTG---GCTCTCATAATG
* * * * * *
88784867 TACTGATACCATGTCCCAGACATGGTCTTACACTGACACATC-TCAT-
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATG
* * **
88784913 AGCCGATG-TATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATG
* * *
88784958 AGGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAA--
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA--T-AATG
*
88785005 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
* *
88785052 TGGCCGATG-CATGTCCTAGACAT-GTCTGACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
88785085 AGCACACAAA
Statistics
Matches: 285, Mismatches: 51, Indels: 57
0.73 0.13 0.15
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 17 0.06
45 19 0.07
46 58 0.20
47 59 0.21
48 58 0.20
49 34 0.12
50 32 0.11
52 1 0.00
53 5 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
Found at i:88785061 original size:94 final size:96
Alignment explanation
Indices: 88784682--88785087 Score: 342
Period size: 94 Copynumber: 4.3 Consensus size: 96
88784672 ATGCCAATGC
* * * * *
88784682 CATGTCCCAGACATCGTCTTACACTGGCTCATCCAT-T-AA-GTCGATGCCATGTCCCAAATATG
1 CATGTCCCAGACATGGTCTTACACTAGCTC-TCCATCTCAATGCCGATGCCATGTCCCAGACATG
* * * * * *
88784744 GTCTTACATTGACTATCAAAATCAAGGCTGACG
65 GTCTTACACTGGCTCTCATAAT-GAGGCTGATG
* ** * *
88784777 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTACCGATGCCATGTCCTAGACAT
1 -CATGTCCCAGACATGGTCTTACACTAGCTCTC-CATCTCAATGCCGATGCCATGTCCCAGACAT
* *
88784842 GGTCTTACACTGATAGCTCT-AT-ACGTA--CTGATAC
64 GGTCTTACACTG---GCTCTCATAATG-AGGCTGAT-G
* * *
88784876 CATGTCCCAGACATGGTCTTACACT-G-AC-ACATCTC-ATAGCCGATG-TATGTCCCAGACAT-
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCCATCTCAAT-GCCGATGCCATGTCCCAGACATG
**
88784935 GTCTTACACTGGCT-TACATCTTGAGGCTGATG
65 GTCTTACACTGGCTCT-CATAATGAGGCTGATG
*
88784967 CATGTCCCAGACAT-GTCTTACACTAGCTCT-CATCTCAATGCTGATGCCATGTCCCAGACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCCATCTCAATGCCGATGCCATGTCCCAGACATGG
* *
88785030 TCTTACACTGGCTCTCATAATGTGGCCGATG
66 TCTTACACTGGCTCTCATAATGAGGCTGATG
* *
88785061 CATGTCCTAGACAT-GTCTGACACTAGC
1 CATGTCCCAGACATGGTCTTACACTAGC
88785088 ACACAAATAA
Statistics
Matches: 252, Mismatches: 36, Indels: 46
0.75 0.11 0.14
Matches are distributed among these distances:
88 1 0.00
89 3 0.01
90 13 0.05
91 16 0.06
92 29 0.12
93 28 0.11
94 62 0.25
95 3 0.01
96 32 0.13
97 2 0.01
98 29 0.12
99 28 0.11
100 2 0.01
101 1 0.00
102 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (96 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCCATCTCAATGCCGATGCCATGTCCCAGACATGG
TCTTACACTGGCTCTCATAATGAGGCTGATG
Found at i:88800253 original size:27 final size:27
Alignment explanation
Indices: 88800215--88800384 Score: 148
Period size: 27 Copynumber: 6.3 Consensus size: 27
88800205 CAAAATAGTC
* * * *
88800215 ATTTTACCCTACAGGGGTATGTCGATC
1 ATTTTACACTACAAGGGTATTTCGATA
*
88800242 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGATA
88800269 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
* ** *
88800296 ATTTTACA-AATTGAGGGTGTTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* * * *
88800323 ATTTTACA-AATCGAGGGTATTTTGGTA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* * *
88800350 ATTTTACA-AATCGAGGGTATTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGATA
88800377 ATTTTACA
1 ATTTTACA
88800385 AATTGAGGGT
Statistics
Matches: 127, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
26 1 0.01
27 126 0.99
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:88800385 original size:27 final size:27
Alignment explanation
Indices: 88800255--88800676 Score: 481
Period size: 27 Copynumber: 15.7 Consensus size: 27
88800245 TTACACTACA
* *
88800255 AGGGTATTTCGGTAATTTTAC-ACTACA
1 AGGGTATTTCGGTAATTTTACAAAT-CG
* *
88800282 AGGGTATTTCGATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
88800309 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
88800336 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
88800363 AGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
88800390 AGGGTATTTAGGTAGTTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
88800417 AGGGTGTTTTC-GTAAATTTAAAAATTG
1 AGGGT-ATTTCGGTAATTTTACAAATCG
* * * * *
88800444 AGGATGTTTCAGTAATTTTACAAGTGG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * * *
88800471 AGGGTGTTTTGATAATTTCACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
88800498 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** *
88800525 AGGGTATTTTAGTAATTTCA-AAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
88800551 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
88800578 GGGGTATTTCGGTAATTTTATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
88800605 AGGGTGTTTCGATAATTTCACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
88800632 GGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
88800659 AGGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTT
88800677 CTCTTTATTA
Statistics
Matches: 331, Mismatches: 60, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
26 26 0.08
27 300 0.91
28 5 0.02
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:88801037 original size:28 final size:28
Alignment explanation
Indices: 88800993--88801112 Score: 168
Period size: 28 Copynumber: 4.3 Consensus size: 28
88800983 TGGCCCCTTT
* * *
88800993 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
88801021 AGGCCCAGTCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
88801049 AGGCCCAATCATATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * *
88801077 AGACCCAATCACATTCATATAGCCTATC
1 AGGCCCAATCACATTCATATGGCCCATC
88801105 AGGCCCAA
1 AGGCCCAA
88801113 CTACTTCCCA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 81 1.00
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.22
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:88824186 original size:59 final size:60
Alignment explanation
Indices: 88824108--88824238 Score: 219
Period size: 59 Copynumber: 2.2 Consensus size: 60
88824098 GTATCAATTG
* *
88824108 CTCAAAAGAAATTTTGTACATATAGTAAAATGCTCATGTAATAAAAAAAGAGCATATGTA
1 CTCAAAAGAAATTTAGTACATATAGTAAAATGCTCATGCAATAAAAAAAGAGCATATGTA
* *
88824168 CTCAAAA-AAATTTAGTACATATAGTAAAATTCTCGTGCAATAAAAAAAGAGCATATGTA
1 CTCAAAAGAAATTTAGTACATATAGTAAAATGCTCATGCAATAAAAAAAGAGCATATGTA
88824227 CTCAAAAGAAAT
1 CTCAAAAGAAAT
88824239 AAATGTACAA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
59 55 0.83
60 11 0.17
ACGTcount: A:0.50, C:0.11, G:0.12, T:0.27
Consensus pattern (60 bp):
CTCAAAAGAAATTTAGTACATATAGTAAAATGCTCATGCAATAAAAAAAGAGCATATGTA
Found at i:88830397 original size:17 final size:17
Alignment explanation
Indices: 88830371--88830404 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
88830361 TTCTCTAAGT
88830371 CACTTCAGAATATTGGG
1 CACTTCAGAATATTGGG
*
88830388 CACTTTAGAATATTGGG
1 CACTTCAGAATATTGGG
88830405 TTGTCTAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (17 bp):
CACTTCAGAATATTGGG
Found at i:88836615 original size:47 final size:47
Alignment explanation
Indices: 88836552--88836945 Score: 628
Period size: 47 Copynumber: 8.4 Consensus size: 47
88836542 CCCTTCGGGA
* *
88836552 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
88836599 CTTATCACATATATACACCTTCACATCCATCACATCGGCCA-TCAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTC-GGC
*
88836646 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
88836693 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
88836740 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
88836787 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
88836834 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
88836881 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
88836928 CTTATCACATATACACAC
1 CTTATCACATATATACAC
88836946 CTTGTACATC
Statistics
Matches: 320, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
46 2 0.01
47 316 0.99
48 2 0.01
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:88840118 original size:38 final size:38
Alignment explanation
Indices: 88840076--88840153 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
88840066 CATCAATATG
88840076 TTAGTCTCATAAATACATAGAATCAACCTTTATCTTAA
1 TTAGTCTCATAAATACATAGAATCAACCTTTATCTTAA
88840114 TTAGTCTCATAAATACATAGAATCAACCTTTATCTTAA
1 TTAGTCTCATAAATACATAGAATCAACCTTTATCTTAA
88840152 TT
1 TT
88840154 TCATACATCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.38
Consensus pattern (38 bp):
TTAGTCTCATAAATACATAGAATCAACCTTTATCTTAA
Found at i:88840446 original size:23 final size:22
Alignment explanation
Indices: 88840417--88840495 Score: 95
Period size: 23 Copynumber: 3.5 Consensus size: 22
88840407 GAGCTGATGG
* *
88840417 ACAGTAAACTATATAGAGCTGAA
1 ACAGTAAGCTATA-CGAGCTGAA
*
88840440 ACAGTAAGCTGTGACGAGCTGAA
1 ACAGTAAGCTAT-ACGAGCTGAA
88840463 ACAGTAAGCTCATACGAGCTGAA
1 ACAGTAAGCT-ATACGAGCTGAA
*
88840486 ACGGTAAGCT
1 ACAGTAAGCT
88840496 CCAACAATCT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 47 0.96
24 2 0.04
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (22 bp):
ACAGTAAGCTATACGAGCTGAA
Found at i:88840496 original size:23 final size:24
Alignment explanation
Indices: 88840432--88840496 Score: 98
Period size: 23 Copynumber: 2.8 Consensus size: 24
88840422 AAACTATATA
*
88840432 GAGCTGAAACAGTAAGCT-GTGAC
1 GAGCTGAAACAGTAAGCTCATGAC
88840455 GAGCTGAAACAGTAAGCTCAT-AC
1 GAGCTGAAACAGTAAGCTCATGAC
*
88840478 GAGCTGAAACGGTAAGCTC
1 GAGCTGAAACAGTAAGCTC
88840497 CAACAATCTG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
23 38 0.97
24 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.28, T:0.17
Consensus pattern (24 bp):
GAGCTGAAACAGTAAGCTCATGAC
Found at i:88846319 original size:30 final size:29
Alignment explanation
Indices: 88846277--88846333 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
88846267 AAAGATAACA
*
88846277 AGAAAACCGAATAAAGAAATCCAAGATTG
1 AGAAAACCGAATAAAGAAACCCAAGATTG
*
88846306 AGAAACCCAGAATAAAGAAACCCAAGAT
1 AGAAAACC-GAATAAAGAAACCCAAGAT
88846334 ACGATACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.56, C:0.18, G:0.16, T:0.11
Consensus pattern (29 bp):
AGAAAACCGAATAAAGAAACCCAAGATTG
Found at i:88853113 original size:16 final size:17
Alignment explanation
Indices: 88853092--88853125 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
88853082 CATACATTTG
*
88853092 ATCAATTCATAT-AATC
1 ATCAATCCATATCAATC
88853108 ATCAATCCATATCAATC
1 ATCAATCCATATCAATC
88853125 A
1 A
88853126 ATTTGTCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (17 bp):
ATCAATCCATATCAATC
Found at i:88854540 original size:23 final size:23
Alignment explanation
Indices: 88854511--88854563 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
88854501 TGATGGATAA
** *
88854511 TAAGCTCTATTAAGCTGAAACGG
1 TAAGCTCTAACAAGCTGAAACAG
*
88854534 TAAGCTCTAACGAGCTGAAACAG
1 TAAGCTCTAACAAGCTGAAACAG
88854557 TAAGCTC
1 TAAGCTC
88854564 ATATGAGCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (23 bp):
TAAGCTCTAACAAGCTGAAACAG
Found at i:88855445 original size:26 final size:26
Alignment explanation
Indices: 88855409--88855461 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
88855399 TCCTCAAACA
88855409 AGTCATGATTATGGCAATATCATATT
1 AGTCATGATTATGGCAATATCATATT
88855435 AGTCATGATTATGGCAATATCATATT
1 AGTCATGATTATGGCAATATCATATT
88855461 A
1 A
88855462 TCTTATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (26 bp):
AGTCATGATTATGGCAATATCATATT
Found at i:88856384 original size:42 final size:42
Alignment explanation
Indices: 88856263--88856392 Score: 117
Period size: 42 Copynumber: 3.1 Consensus size: 42
88856253 TAAGATGCCA
* **
88856263 ATGCCATA-TCCCAGATATGGTCTTACATGGGATCACATATCG
1 ATGCCATAGTCCCAGA-ATGGTCTTACACGAAATCACATATCG
* ** *
88856305 ATGCCAATAG-CCC--AATTGTCTTACACGATGTCTCATATCG
1 ATGCC-ATAGTCCCAGAATGGTCTTACACGAAATCACATATCG
* *
88856345 ATGCC-TTGTCCCAGACATGGTCTTACACGAAATCACATATTG
1 ATGCCATAGTCCCAGA-ATGGTCTTACACGAAATCACATATCG
88856387 ATGCCA
1 ATGCCA
88856393 ATGCCATATC
Statistics
Matches: 69, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
38 2 0.03
39 3 0.04
40 25 0.36
41 2 0.03
42 31 0.45
43 6 0.09
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCATAGTCCCAGAATGGTCTTACACGAAATCACATATCG
Found at i:88859802 original size:51 final size:51
Alignment explanation
Indices: 88859747--88859875 Score: 177
Period size: 51 Copynumber: 2.5 Consensus size: 51
88859737 ATGATCTTGA
* * *
88859747 AAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGTAATCTTAT
1 AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATAGGTAATCTTAG
* ** * *
88859798 AAGATATTATTTTATAAGATTACATATCTTAGATAAGATAGGTAATCTTAG
1 AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATAGGTAATCTTAG
*
88859849 AAGATATGATTTTATATTCTTAGAGAT
1 AAGATATGATTTTATAATCTTAGAGAT
88859876 TTGATTGTAG
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (51 bp):
AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATAGGTAATCTTAG
Found at i:88866194 original size:42 final size:42
Alignment explanation
Indices: 88866090--88866226 Score: 120
Period size: 42 Copynumber: 3.3 Consensus size: 42
88866080 TATCGCAGAT
* **
88866090 ATGGTCTTACATGGGATCTCATATTAATGCCATTAG-CCTAG-C
1 ATGGTCTTACAT-GAATCTCATATCGATGCCA-TAGCCCTAGAC
* * *
88866132 TATGGTCTGACACGATTCTCATATCGATGCCAT-GCCCTAGAC
1 -ATGGTCTTACATGAATCTCATATCGATGCCATAGCCCTAGAC
* * * *
88866174 ATGGTCTTACATGAAATCTCATAACGATGCTATATCCC-AGAT
1 ATGGTCTTACATG-AATCTCATATCGATGCCATAGCCCTAGAC
88866216 ATGGTCTTACA
1 ATGGTCTTACA
88866227 CGTAAACTTA
Statistics
Matches: 77, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
40 1 0.01
41 17 0.22
42 46 0.60
43 13 0.17
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (42 bp):
ATGGTCTTACATGAATCTCATATCGATGCCATAGCCCTAGAC
Found at i:88875594 original size:30 final size:30
Alignment explanation
Indices: 88875558--88875618 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
88875548 TCCTTAACTC
88875558 AAACTTTGGAAAAGTTACAATTTTGCCCCT
1 AAACTTTGGAAAAGTTACAATTTTGCCCCT
* * * * *
88875588 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAGTTACAATTTTGCCCCT
88875618 A
1 A
88875619 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAGTTACAATTTTGCCCCT
Found at i:88878396 original size:38 final size:40
Alignment explanation
Indices: 88878335--88878409 Score: 109
Period size: 38 Copynumber: 1.9 Consensus size: 40
88878325 ATTTGACGTG
* *
88878335 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGGCTTAAAGACCCGCAGGCCTAGTGCTGGTAAAA
*
88878375 TATCCGGG-TTAAA-TCCCGCAGGCCTAGTGCTGGTA
1 TATCCGGGCTTAAAGACCCGCAGGCCTAGTGCTGGTA
88878410 TTATATTCGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 19 0.59
39 5 0.16
40 8 0.25
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCCTAGTGCTGGTAAAA
Found at i:88878625 original size:106 final size:106
Alignment explanation
Indices: 88878440--88878650 Score: 422
Period size: 106 Copynumber: 2.0 Consensus size: 106
88878430 CTAGCAGGCT
88878440 TAATGCCGGTGAAATGATATGTTATGTGAATTCAGTGTTCCTTGTAAGATAAGGGTTTAGCCGAA
1 TAATGCCGGTGAAATGATATGTTATGTGAATTCAGTGTTCCTTGTAAGATAAGGGTTTAGCCGAA
88878505 TGTTAAAGATGAAATGATAGTGTATTGTATCATGATTATAG
66 TGTTAAAGATGAAATGATAGTGTATTGTATCATGATTATAG
88878546 TAATGCCGGTGAAATGATATGTTATGTGAATTCAGTGTTCCTTGTAAGATAAGGGTTTAGCCGAA
1 TAATGCCGGTGAAATGATATGTTATGTGAATTCAGTGTTCCTTGTAAGATAAGGGTTTAGCCGAA
88878611 TGTTAAAGATGAAATGATAGTGTATTGTATCATGATTATA
66 TGTTAAAGATGAAATGATAGTGTATTGTATCATGATTATA
88878651 TGGCCTAATG
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 105 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (106 bp):
TAATGCCGGTGAAATGATATGTTATGTGAATTCAGTGTTCCTTGTAAGATAAGGGTTTAGCCGAA
TGTTAAAGATGAAATGATAGTGTATTGTATCATGATTATAG
Found at i:88897739 original size:40 final size:40
Alignment explanation
Indices: 88897638--88897822 Score: 253
Period size: 40 Copynumber: 4.6 Consensus size: 40
88897628 TATTCGAATG
* *
88897638 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTGACT
* * * *
88897679 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
88897719 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
88897759 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
88897799 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
88897823 CTTGATCGAG
Statistics
Matches: 124, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
40 96 0.77
41 28 0.23
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:88905823 original size:40 final size:40
Alignment explanation
Indices: 88905722--88905942 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
88905712 TATTCGAATG
* * *
88905722 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* * *
88905763 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
88905803 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
88905843 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * **
88905883 ATATTCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
88905922 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
88905943 ATACTTGGGT
Statistics
Matches: 151, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 14 0.09
40 95 0.63
41 28 0.19
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:88922032 original size:29 final size:29
Alignment explanation
Indices: 88921998--88922069 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
88921988 ATCAATCACG
* *
88921998 CACACTTAGTGCCATGTACTTT-AAACTCA
1 CACACTTAGTGCCATGCA-TTTCAAACCCA
* *
88922027 CACACTTAGTGCCATGCATTTCAAGCCCG
1 CACACTTAGTGCCATGCATTTCAAACCCA
88922056 CACACTTAGTGCCA
1 CACACTTAGTGCCA
88922070 ATCTCACAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 3 0.08
29 35 0.92
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATGCATTTCAAACCCA
Found at i:88931850 original size:13 final size:13
Alignment explanation
Indices: 88931832--88931873 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
88931822 CCAGACTTCC
88931832 TCACACGGGCGTG
1 TCACACGGGCGTG
88931845 TCACACGGGCGTG
1 TCACACGGGCGTG
*
88931858 TCACACGGCCGTG
1 TCACACGGGCGTG
88931871 TCA
1 TCA
88931874 ATTTGGCAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.17
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:88931979 original size:13 final size:13
Alignment explanation
Indices: 88931961--88931985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88931951 CAGTAATCGC
88931961 ACACGGGCGTGTT
1 ACACGGGCGTGTT
88931974 ACACGGGCGTGT
1 ACACGGGCGTGT
88931986 CCCTACCAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:88933821 original size:67 final size:67
Alignment explanation
Indices: 88933713--88933848 Score: 263
Period size: 67 Copynumber: 2.0 Consensus size: 67
88933703 CATGTATAAA
88933713 TATGGGCCAAGTGCCTTGTGTTCCTCTTTTCGATGCTCAAATGATTAAATCAATTTATTTGTTTA
1 TATGGGCCAAGTGCCTTGTGTTCCTCTTTTCGATGCTCAAATGATTAAATCAATTTATTTGTTTA
88933778 AT
66 AT
*
88933780 TATGGGCTAAGTGCCTTGTGTTCCTCTTTTCGATGCTCAAATGATTAAATCAATTTATTTGTTTA
1 TATGGGCCAAGTGCCTTGTGTTCCTCTTTTCGATGCTCAAATGATTAAATCAATTTATTTGTTTA
88933845 AT
66 AT
88933847 TA
1 TA
88933849 AGCTCAAGAG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.44
Consensus pattern (67 bp):
TATGGGCCAAGTGCCTTGTGTTCCTCTTTTCGATGCTCAAATGATTAAATCAATTTATTTGTTTA
AT
Found at i:88933994 original size:102 final size:102
Alignment explanation
Indices: 88933818--88934019 Score: 395
Period size: 102 Copynumber: 2.0 Consensus size: 102
88933808 TTCGATGCTC
*
88933818 AAATGATTAAATCAATTTATTTGTTTAATTAAGCTCAAGAGCAAAGGGGAACTAAATCCGATAAA
1 AAATGATTAAATCAATTTATTTGTTTAATTAAGCTCAAGAGCAAAGAGGAACTAAATCCGATAAA
88933883 GGGAAGGAAAAAGTGGTCGAATAGCCATCGGAATCGT
66 GGGAAGGAAAAAGTGGTCGAATAGCCATCGGAATCGT
88933920 AAATGATTAAATCAATTTATTTGTTTAATTAAGCTCAAGAGCAAAGAGGAACTAAATCCGATAAA
1 AAATGATTAAATCAATTTATTTGTTTAATTAAGCTCAAGAGCAAAGAGGAACTAAATCCGATAAA
88933985 GGGAAGGAAAAAGTGGTCGAATAGCCATCGGAATC
66 GGGAAGGAAAAAGTGGTCGAATAGCCATCGGAATC
88934020 ATTCGACAAC
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 99 1.00
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (102 bp):
AAATGATTAAATCAATTTATTTGTTTAATTAAGCTCAAGAGCAAAGAGGAACTAAATCCGATAAA
GGGAAGGAAAAAGTGGTCGAATAGCCATCGGAATCGT
Found at i:88934474 original size:47 final size:47
Alignment explanation
Indices: 88934420--88934832 Score: 727
Period size: 47 Copynumber: 8.7 Consensus size: 47
88934410 TTAGGATTCT
88934420 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
88934467 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
88934514 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
88934561 ATGTGATGAATGTGAAAGGGTATGTATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTA--TATATGTGATAAGGCCTAATGGCCG
88934610 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
88934657 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
88934704 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
88934751 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
88934798 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
88934833 TCCCGAAGGG
Statistics
Matches: 352, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 306 0.87
49 46 0.13
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:88934743 original size:190 final size:188
Alignment explanation
Indices: 88934420--88934832 Score: 727
Period size: 190 Copynumber: 2.2 Consensus size: 188
88934410 TTAGGATTCT
88934420 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
88934485 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* * *
88934550 CCTAATGGCCGATGTGATGAATGTGAAAGGGTATGTATATGTGATAAGGCCTAATGGCCG
131 CCTAATGGCCGATGTGATGAATGTGAAAGGGTA--TATATGTGACAAGGCCGAATGGCCA
88934610 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
88934675 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* * *
88934740 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
131 CCTAATGGCCGATGTGATGAATGTGAAAGGGTATATATGTGACAAGGCCGAATGGCCA
* * *
88934798 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
88934833 TCCCGAAGGG
Statistics
Matches: 214, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
188 52 0.24
190 162 0.76
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (188 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGGGTATATATGTGACAAGGCCGAATGGCCA
Found at i:88935007 original size:37 final size:37
Alignment explanation
Indices: 88934951--88935029 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
88934941 CCGAGCTCTA
* *
88934951 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
88934988 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
88935025 AAGAC
1 AAGAC
88935030 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:88936944 original size:43 final size:43
Alignment explanation
Indices: 88936896--88936998 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
88936886 TTGGTTTTCA
88936896 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
88936939 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
88936982 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
88936999 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:88937015 original size:29 final size:29
Alignment explanation
Indices: 88936980--88937053 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
88936970 GTTGTGAGAT
* *
88936980 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
88937009 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
88937038 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
88937054 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:88937487 original size:40 final size:40
Alignment explanation
Indices: 88937443--88937679 Score: 348
Period size: 40 Copynumber: 5.9 Consensus size: 40
88937433 GAGATACTAA
88937443 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
88937483 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
88937523 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
88937563 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* ** * * * *
88937603 ATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
88937643 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
88937680 CGTGTATTCG
Statistics
Matches: 181, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:88937501 original size:80 final size:80
Alignment explanation
Indices: 88937364--88937666 Score: 346
Period size: 80 Copynumber: 3.8 Consensus size: 80
88937354 TCGAATGATG
** * *
88937364 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAG-GC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATATCCGGGCTAAG-TCCCGAAGAGC
* * *
88937425 ATTTGTGCGAGAT-ACTAAA
63 ATTCGTGCTAG-TGA-TATA
*
88937444 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
* *
88937509 CATGCTAGTGATGTA
66 CGTGCTAGTGATATA
* * *
88937524 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
88937589 CGTGCTAGTGATATA
66 CGTGCTAGTGATATA
* ** * * * *
88937604 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCA
88937667 ATCATGCTGG
Statistics
Matches: 194, Mismatches: 24, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.01
80 169 0.87
81 18 0.09
82 6 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
CGTGCTAGTGATATA
Found at i:88940656 original size:40 final size:40
Alignment explanation
Indices: 88940504--88940649 Score: 190
Period size: 40 Copynumber: 3.6 Consensus size: 40
88940494 TTGAATGATG
* * * *
88940504 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
88940544 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
88940584 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
88940625 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88940650 AACGAGTAGC
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
39 1 0.01
40 84 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:88945204 original size:39 final size:41
Alignment explanation
Indices: 88945109--88945292 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
88945099 TTGAATTCTG
*
88945109 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
88945148 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
88945188 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
88945227 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
88945267 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88945293 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:88945244 original size:79 final size:81
Alignment explanation
Indices: 88945109--88945292 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
88945099 TTGAATTCTG
88945109 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
88945172 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
88945187 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
88945248 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
88945267 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88945293 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:88945314 original size:79 final size:79
Alignment explanation
Indices: 88945161--88945325 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
88945151 GGACTAAGAT
* ** *
88945161 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
88945226 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
88945240 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
88945302 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
88945319 CCGAAGG
1 CCGAAGG
88945326 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:88948013 original size:31 final size:31
Alignment explanation
Indices: 88947970--88948033 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
88947960 CCTTTTCATA
88947970 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
88948001 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
88948032 TT
1 TT
88948034 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:88948306 original size:47 final size:49
Alignment explanation
Indices: 88948226--88948368 Score: 186
Period size: 47 Copynumber: 3.0 Consensus size: 49
88948216 GCTTTATCAT
* *
88948226 ATAACTGGAGGCCT-AGCCTCTTTTAGTAACTGGGGCA-AAGCCCTTTTTA
1 ATAACT-GAGGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTA
* *
88948275 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC-TTTTG
1 ATAACTGAGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTA
* *
88948322 ATAACTGAGGCATAAGCCCTTTTGATAATTGGGGCATAAGCCCTTTT
1 ATAACTGAGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
88948369 GCACTTCCTC
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
47 37 0.45
48 33 0.40
49 13 0.16
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (49 bp):
ATAACTGAGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTA
Found at i:88948369 original size:24 final size:24
Alignment explanation
Indices: 88948226--88948369 Score: 179
Period size: 24 Copynumber: 6.0 Consensus size: 24
88948216 GCTTTATCAT
*
88948226 ATAACTGGAGGCCT-AGCCTCTTTT-
1 ATAACTGG-GGCATAAGCC-CTTTTG
*
88948250 AGTAACTGGGGCA-AAGCCCTTTTTA
1 A-TAACTGGGGCATAAGCCC-TTTTG
*
88948275 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
88948298 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
88948322 ATAACTGAGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
88948346 ATAATTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
88948370 CACTTCCTCC
Statistics
Matches: 109, Mismatches: 5, Indels: 12
0.87 0.04 0.10
Matches are distributed among these distances:
23 24 0.22
24 71 0.65
25 14 0.13
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:88948439 original size:9 final size:9
Alignment explanation
Indices: 88948425--88948481 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
88948415 ATCTCGTGTG
88948425 CATATCATA
1 CATATCATA
*
88948434 CATATCATGTG
1 CATATCA--TA
88948445 CATATCATA
1 CATATCATA
* *
88948454 CATGTCATGTG
1 CATATCA--TA
88948465 CATATCATA
1 CATATCATA
88948474 CATATCAT
1 CATATCAT
88948482 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:88948444 original size:20 final size:20
Alignment explanation
Indices: 88948421--88948483 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
88948411 GAACATCTCG
88948421 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
88948441 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
88948461 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
88948481 TGT
1 TGT
88948484 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:88948548 original size:25 final size:25
Alignment explanation
Indices: 88948520--88948567 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
88948510 ATATATAAAC
* * *
88948520 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
88948545 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
88948568 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:88955155 original size:14 final size:14
Alignment explanation
Indices: 88955138--88955165 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
88955128 ACAAGCTGAA
88955138 AGAGAAGCTTGAGT
1 AGAGAAGCTTGAGT
88955152 AGAGAAGCTTGAGT
1 AGAGAAGCTTGAGT
88955166 TTCTGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.36, T:0.21
Consensus pattern (14 bp):
AGAGAAGCTTGAGT
Found at i:88983826 original size:19 final size:19
Alignment explanation
Indices: 88983802--88983840 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
88983792 CTGTTTAAGA
88983802 TTTTAGAAATAGTTGAATT
1 TTTTAGAAATAGTTGAATT
88983821 TTTTAGAAATAGTTGAATT
1 TTTTAGAAATAGTTGAATT
88983840 T
1 T
88983841 AACTTCACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (19 bp):
TTTTAGAAATAGTTGAATT
Found at i:88987883 original size:41 final size:41
Alignment explanation
Indices: 88987784--88987876 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 41
88987774 TGCGGTTACT
*
88987784 TGACAGCTTGTGTGAGCAGCACCATATAGCTATGTCTGGAC
1 TGACAGCTTGTGTGAGCACCACCATATAGCTATGTCTGGAC
*
88987825 TGACAGCTTGTGTGAGCACCACCGTATAGCTATGTCTGGAC
1 TGACAGCTTGTGTGAGCACCACCATATAGCTATGTCTGGAC
88987866 TGACAGCTTGT
1 TGACAGCTTGT
88987877 ACGAGCAAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (41 bp):
TGACAGCTTGTGTGAGCACCACCATATAGCTATGTCTGGAC
Found at i:88998942 original size:28 final size:28
Alignment explanation
Indices: 88998910--88999008 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
88998900 ATAGTAAGTC
*
88998910 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
88998938 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
88998966 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
88998995 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88999009 CAATCTCATG
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 45 0.71
29 18 0.29
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:89005073 original size:46 final size:45
Alignment explanation
Indices: 89005021--89005192 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 45
89005011 TGTAACCCGC
* *
89005021 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCG-AT
* *
89005067 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACG-T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TT-CGAT
* *
89005117 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCG-AT
*
89005160 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
89005193 TGGATGCTCA
Statistics
Matches: 105, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 2 0.02
44 2 0.02
45 3 0.03
46 57 0.54
47 27 0.26
48 3 0.03
49 2 0.02
50 2 0.02
51 2 0.02
52 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGAT
Found at i:89005140 original size:93 final size:93
Alignment explanation
Indices: 89005028--89005199 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
89005018 CGCCCATAAG
*
89005028 CGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
89005093 ATGAGTTCGGATGCCTAGTTACGTCTCA
66 ACGAGTTCGGATGCCTAGTTACGTCTCA
* * *
89005121 CGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
89005186 ACGAGTTTGGATGC
66 ACGAGTTCGGATGC
89005200 TCAAATATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACGTCTCA
Found at i:89010845 original size:44 final size:43
Alignment explanation
Indices: 89010795--89010948 Score: 152
Period size: 43 Copynumber: 3.6 Consensus size: 43
89010785 TGTGTTATCG
*
89010795 TGTAAGACCATGTTTGGGACATTGGCATCGATTTGTGATTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATTT-TGATTTACA
* **
89010839 TGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATTT-TG
1 TGTAAGACCATGTCTGGGACATTGGCATCGAT-TTTGATTTACA
* ** * *
89010881 TGTAAGACCCTACCTGGGATAGTGGCATCGATATTTGA-TTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGAT-TTTGATTTACA
* * *
89010924 TGTAAGACCACGTTTGGGACGTTGG
1 TGTAAGACCATGTCTGGGACATTGG
89010949 TATTGTACAA
Statistics
Matches: 87, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
42 27 0.31
43 30 0.34
44 30 0.34
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATTTTGATTTACA
Found at i:89010942 original size:43 final size:43
Alignment explanation
Indices: 89010795--89010948 Score: 145
Period size: 44 Copynumber: 3.6 Consensus size: 43
89010785 TGTGTTATCG
* *
89010795 TGTAAGACCATGTTTGGGACATTGGCATCGAT-TTGTGATTTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATT-TGA-TTACA
* * ***
89010839 TGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATTTTG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
* *
89010881 TGTAAGACC-C-TACCTGGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCACGT--CTGGGACATTGGCATCGATATTTGATTACA
* *
89010924 TGTAAGACCACGTTTGGGACGTTGG
1 TGTAAGACCACGTCTGGGACATTGG
89010949 TATTGTACAA
Statistics
Matches: 88, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
40 1 0.01
42 26 0.30
43 29 0.33
44 31 0.35
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
Found at i:89013968 original size:18 final size:19
Alignment explanation
Indices: 89013930--89013968 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
89013920 AACACACGAG
*
89013930 TTTTCAAAAAGATAAATGA
1 TTTTCAAAAAGACAAATGA
*
89013949 TTTTCAAAAATACAAA-GA
1 TTTTCAAAAAGACAAATGA
89013967 TT
1 TT
89013969 GTGTAAATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (19 bp):
TTTTCAAAAAGACAAATGA
Found at i:89019483 original size:68 final size:67
Alignment explanation
Indices: 89019410--89019559 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
89019400 CATCATGTGT
* * * *
89019410 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
89019472 ATGTAG
62 ATGTAG
** * *
89019478 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
89019543 AG
66 AG
89019545 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
89019560 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:89019515 original size:64 final size:64
Alignment explanation
Indices: 89019434--89019617 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
89019424 AGACATTATG
* *
89019434 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
89019498 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
89019563 AA
63 AA
* * * *
89019565 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
89019618 CAAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:89022010 original size:24 final size:24
Alignment explanation
Indices: 89021978--89022026 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
89021968 TACGACTTGG
* *
89021978 TGTGTAGGGTTGGGTGGGTTGATT
1 TGTGTAGGGATGGGTGGGTCGATT
89022002 TGTGTAGGGATGGGTGGGTCGATT
1 TGTGTAGGGATGGGTGGGTCGATT
89022026 T
1 T
89022027 TATCCCCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.10, C:0.02, G:0.49, T:0.39
Consensus pattern (24 bp):
TGTGTAGGGATGGGTGGGTCGATT
Found at i:89029049 original size:31 final size:32
Alignment explanation
Indices: 89029027--89029100 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 32
89029017 CGGGGTTGGG
89029027 AAACGGGCGTGTGTGACCACAC-GGCCTGCCC
1 AAACGGGCGTGTGTGACCACACGGGCCTGCCC
* *
89029058 ACACGGGCGTGTGTGACCACAC-GGCCTACCC
1 AAACGGGCGTGTGTGACCACACGGGCCTGCCC
*
89029089 ACACGGGCGTGT
1 AAACGGGCGTGT
89029101 CCCATATCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.19, C:0.35, G:0.32, T:0.14
Consensus pattern (32 bp):
AAACGGGCGTGTGTGACCACACGGGCCTGCCC
Found at i:89029079 original size:18 final size:18
Alignment explanation
Indices: 89029029--89029081 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
89029019 GGGTTGGGAA
89029029 ACGGGCGTGTGTGACCAC
1 ACGGGCGTGTGTGACCAC
* *
89029047 AC-GGC----CTGCCCAC
1 ACGGGCGTGTGTGACCAC
89029060 ACGGGCGTGTGTGACCAC
1 ACGGGCGTGTGTGACCAC
89029078 ACGG
1 ACGG
89029082 CCTACCCACA
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
13 8 0.31
14 3 0.12
17 3 0.12
18 12 0.46
ACGTcount: A:0.17, C:0.34, G:0.36, T:0.13
Consensus pattern (18 bp):
ACGGGCGTGTGTGACCAC
Found at i:89030460 original size:20 final size:20
Alignment explanation
Indices: 89030437--89030474 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89030427 AGGAGCAGTG
* *
89030437 ATGTGCACACAGGGGCACAA
1 ATGTGCAAAAAGGGGCACAA
89030457 ATGTGCAAAAAGGGGCAC
1 ATGTGCAAAAAGGGGCAC
89030475 CGTAGTGCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.21, G:0.32, T:0.11
Consensus pattern (20 bp):
ATGTGCAAAAAGGGGCACAA
Found at i:89031996 original size:29 final size:29
Alignment explanation
Indices: 89031956--89032012 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
89031946 GCTAGCGAAA
89031956 TATGAAAAGGGATGATGACGACCATCAAC
1 TATGAAAAGGGATGATGACGACCATCAAC
*
89031985 TATGAAAAGGGATGGTGACGACCATCAA
1 TATGAAAAGGGATGATGACGACCATCAA
89032013 ATTATGATCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.16, G:0.26, T:0.18
Consensus pattern (29 bp):
TATGAAAAGGGATGATGACGACCATCAAC
Found at i:89032101 original size:30 final size:30
Alignment explanation
Indices: 89032033--89032103 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
89032023 GCTATCGAAC
** * *
89032033 TATGAAAAATGATGGCTTCGGTTATCAAAT
1 TATGAAAAGGGATAGCTTCGGATATCAAAT
**
89032063 TATGAAAAGGGATAGCTTCGGATATTGAAT
1 TATGAAAAGGGATAGCTTCGGATATCAAAT
89032093 TATGAAAAGGG
1 TATGAAAAGGG
89032104 TGGTGACGGC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TATGAAAAGGGATAGCTTCGGATATCAAAT
Found at i:89032147 original size:29 final size:28
Alignment explanation
Indices: 89032093--89032147 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
89032083 GATATTGAAT
*
89032093 TATGAAAAGGGTGGTGACGGCCATCAAC
1 TATGAAAAGGGTGGTGACGACCATCAAC
*
89032121 TATGAAAAGGGATGGTGACGACTATCA
1 TATGAAAAGGG-TGGTGACGACCATCA
89032148 TGATACCACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.35, C:0.15, G:0.31, T:0.20
Consensus pattern (28 bp):
TATGAAAAGGGTGGTGACGACCATCAAC
Found at i:89035999 original size:13 final size:13
Alignment explanation
Indices: 89035981--89036006 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89035971 GCATGAATAA
89035981 TATGATAGGAGAG
1 TATGATAGGAGAG
89035994 TATGATAGGAGAG
1 TATGATAGGAGAG
89036007 ACTAACATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (13 bp):
TATGATAGGAGAG
Found at i:89036317 original size:45 final size:45
Alignment explanation
Indices: 89036247--89036367 Score: 127
Period size: 45 Copynumber: 2.7 Consensus size: 45
89036237 CTTTACGCCT
* * * * *
89036247 AAATGAGTAAGACCATAGCTAAAAGATGCTGGGGTATCATGATGG
1 AAATGAGTAAGACCATAGTTGAAAGATGCTAGGGCATCATGATGA
* *
89036292 AAATGAGTAAGACCAT-GATTGAAAGACGCTATGGCATCATGATGA
1 AAATGAGTAAGACCATAG-TTGAAAGATGCTAGGGCATCATGATGA
* * * *
89036337 AAAGGATTAAAACAATAGTTGAAAGATGCTA
1 AAATGAGTAAGACCATAGTTGAAAGATGCTA
89036368 TGGTATCCTT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
44 1 0.02
45 60 0.97
46 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.22
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGTTGAAAGATGCTAGGGCATCATGATGA
Found at i:89037369 original size:27 final size:27
Alignment explanation
Indices: 89037334--89037445 Score: 122
Period size: 27 Copynumber: 4.1 Consensus size: 27
89037324 AGCATGGCTG
* *
89037334 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
* * *
89037360 CAAGATACAGATAATCATGGCAGAGCCC
1 CCAGATACAGATAAT-GTGGCAGAGCCA
89037388 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
89037415 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
89037442 CCAG
1 CCAG
89037446 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
26 5 0.07
27 53 0.74
28 14 0.19
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:89037435 original size:54 final size:54
Alignment explanation
Indices: 89037334--89037445 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
89037324 AGCATGGCTG
* *
89037334 CCAGAACAGATAATGTGACAGAGTCACAAGATACAGATAATCATGGCAGAGCCC
1 CCAGAACAGATAATGTGACAGAGCCACAAGATACAGATAATCATGGCAGAGCCA
* * ** *
89037388 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACAAGATACAGATAATCATGGCAGAGCCA
89037442 CCAG
1 CCAG
89037446 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACAAGATACAGATAATCATGGCAGAGCCA
Found at i:89040475 original size:20 final size:20
Alignment explanation
Indices: 89040450--89040492 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
89040440 TGTCAGACAT
*
89040450 TTCCCTACCAACTCCCTTAC
1 TTCCCTACAAACTCCCTTAC
*
89040470 TTCCCTACAAACTCCGTTAC
1 TTCCCTACAAACTCCCTTAC
89040490 TTC
1 TTC
89040493 TCGTTTAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.44, G:0.02, T:0.33
Consensus pattern (20 bp):
TTCCCTACAAACTCCCTTAC
Found at i:89045261 original size:27 final size:26
Alignment explanation
Indices: 89045197--89045308 Score: 109
Period size: 27 Copynumber: 4.2 Consensus size: 26
89045187 AGCATGGCTG
*
89045197 CCAGAACAGATAATGTGACAGAG-TCA
1 CCAGAACAGATAATGTGGCAGAGCT-A
* *
89045223 CCAGATATAGATAATCGTGGCAGAGCTG
1 CCAGA-ACAGATAAT-GTGGCAGAGCTA
*
89045251 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCTA
* * *
89045278 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCTA
89045305 CCAG
1 CCAG
89045309 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
26 6 0.08
27 51 0.70
28 15 0.21
29 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCTA
Found at i:89045289 original size:54 final size:54
Alignment explanation
Indices: 89045193--89045298 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
89045183 ATGTAGCATG
* *
89045193 GCTGCCAGAACAGATAATGTGACAGAGTCACCAGATATAGATAATCGTGGCAGA
1 GCTGCCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGA
* *
89045247 GCTGCCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCA
1 GCTGCCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCA
89045299 TAGCCACCAG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (54 bp):
GCTGCCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGA
Found at i:89049153 original size:39 final size:39
Alignment explanation
Indices: 89049036--89050000 Score: 1706
Period size: 39 Copynumber: 24.6 Consensus size: 39
89049026 GCTCCTCGTT
* * * *
89049036 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCAGG-CTTAGCCCGGAAT-TAGTATCTCGCA
* * * *
89049076 CAAATGCCTTCAGGACTTACCCCGGATTTAATAACTCGCA
1 CAAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCA
*
89049116 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049155 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049194 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049233 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049272 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049311 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049350 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049389 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049428 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049467 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049506 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049545 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049584 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049623 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049662 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049701 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049740 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049779 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049818 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049857 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
89049896 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
* *
89049935 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCAGG--CTTAGCCCGGA-ATTAGT-ATC-TCGCA
*
89049976 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCAGG-CTTAGCCCGGA
89050001 CATCATTCAA
Statistics
Matches: 904, Mismatches: 14, Indels: 14
0.97 0.02 0.02
Matches are distributed among these distances:
38 2 0.00
39 811 0.90
40 75 0.08
41 16 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:89062100 original size:19 final size:18
Alignment explanation
Indices: 89062078--89062118 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
89062068 TGTTTTAAAC
89062078 TTTAAAAT-TTGTTTATTAT
1 TTTAAAATATT-TTTATT-T
89062097 TTTAAAATATTTTTATTT
1 TTTAAAATATTTTTATTT
89062115 TTTA
1 TTTA
89062119 TATAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 14 0.67
20 2 0.10
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTAAAATATTTTTATTT
Found at i:89064283 original size:72 final size:71
Alignment explanation
Indices: 89064159--89064298 Score: 208
Period size: 72 Copynumber: 2.0 Consensus size: 71
89064149 ATTTACCCAG
** * * *
89064159 TTTTTTGGTAAAAGGGGTCAAATACATTCTAACCCCTAATACAATGGTCTTCATGGTACTTTTAC
1 TTTTTTGGTAAAAGAAGCCAAATACATTCCAACCCCTAATACAATGGCCTTCATGGTACTTTTAC
89064224 CTAACC
66 CTAACC
* *
89064230 TTTTTTGAGTAAAAGAAGCCAAATATATTCCAACCCCTAATACAATTGCCTTCATGGTACTTTTA
1 TTTTTTG-GTAAAAGAAGCCAAATACATTCCAACCCCTAATACAATGGCCTTCATGGTACTTTTA
89064295 CCTA
65 CCTA
89064299 GCCAATATGT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
71 7 0.11
72 54 0.89
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.35
Consensus pattern (71 bp):
TTTTTTGGTAAAAGAAGCCAAATACATTCCAACCCCTAATACAATGGCCTTCATGGTACTTTTAC
CTAACC
Found at i:89068045 original size:11 final size:11
Alignment explanation
Indices: 89068029--89068058 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
89068019 GATAGTAGCA
89068029 AAAGATAAAGG
1 AAAGATAAAGG
89068040 AAAGATAAAGG
1 AAAGATAAAGG
89068051 AAAGATAA
1 AAAGATAA
89068059 GAAAGGTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.23, T:0.10
Consensus pattern (11 bp):
AAAGATAAAGG
Found at i:89071080 original size:29 final size:29
Alignment explanation
Indices: 89071000--89071088 Score: 119
Period size: 30 Copynumber: 3.1 Consensus size: 29
89070990 TTATATTCAC
*
89071000 ATGGCCCATTAGGCCCAAATCACATTTAT
1 ATGGCCTATTAGGCCCAAATCACATTTAT
*
89071029 ATGACCCCT-TTAGGCCCAAATCACATTTAT
1 ATG--GCCTATTAGGCCCAAATCACATTTAT
*
89071059 GTGGCCTATTAGGCCCAAATCACA-TTAT
1 ATGGCCTATTAGGCCCAAATCACATTTAT
89071087 AT
1 AT
89071089 TCATGCTCAC
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
28 8 0.15
29 19 0.37
30 23 0.44
31 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.29
Consensus pattern (29 bp):
ATGGCCTATTAGGCCCAAATCACATTTAT
Found at i:89080690 original size:52 final size:49
Alignment explanation
Indices: 89080573--89080747 Score: 156
Period size: 52 Copynumber: 3.5 Consensus size: 49
89080563 CAGATACTCG
* ** * *
89080573 GTGGCCTGCACATAGTACCAC-CCTTGTAGTCAAAGCTACCATATTCACAAA
1 GTGGCCTTCACATAGTACCACACC-TGTAACCAAAGCT-TC-TCTTCACAAA
*
89080624 GTGGCCTTCGCATAGTACCACACCTGTAACCAAAGCTGTCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACCTGTAACCAAAGCT-TC--TCTTCACAAA
* * * * *
89080676 GTGGCCTTCACATAGTACTACACTTGTGACCAAA-CTATCTCTCCTCAAA
1 GTGGCCTTCACATAGTACCACACCTGTAACCAAAGCT-TCTCTTCACAAA
* *
89080725 GTGGCATTCACATGGTACCACAC
1 GTGGCCTTCACATAGTACCACAC
89080748 TTGTGTCCAA
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
49 28 0.27
51 35 0.34
52 41 0.39
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (49 bp):
GTGGCCTTCACATAGTACCACACCTGTAACCAAAGCTTCTCTTCACAAA
Found at i:89080736 original size:49 final size:50
Alignment explanation
Indices: 89080573--89080762 Score: 168
Period size: 49 Copynumber: 3.8 Consensus size: 50
89080563 CAGATACTCG
* * * * * * *
89080573 GTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAA-CTATCTTCTCCACAAA
* * * * *
89080624 GTGGCCTTCGCATAGTACCACACCTGTAACCAAAGCTGTCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAA-CTATC-TTCTCCACAAA
* *
89080676 GTGGCCTTCACATAGTACTACACTTGTGACCAAACTATC-TCTCCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAACTATCTTCTCCACAAA
* * * *
89080725 GTGGCATTCACATGGTACCACACTTGTGTCCAAGCTAT
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAACTAT
89080763 TTTATTCATA
Statistics
Matches: 116, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 41 0.35
51 35 0.30
52 40 0.34
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (50 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAACTATCTTCTCCACAAA
Found at i:89080830 original size:28 final size:28
Alignment explanation
Indices: 89080795--89080892 Score: 98
Period size: 28 Copynumber: 3.6 Consensus size: 28
89080785 GAAATTTCTG
89080795 ACTTAGCACAATGCCATTGG-CTTATTTC
1 ACTTAGCACAATGCCA-TGGACTTATTTC
* * *
89080823 ACTTAGCACATTGCCGTGGACTCATTTC
1 ACTTAGCACAATGCCATGGACTTATTTC
*
89080851 ACTTAG----ATGCCATGGTCTTATTTC
1 ACTTAGCACAATGCCATGGACTTATTTC
* *
89080875 ACTTAGCAAAATGTCATG
1 ACTTAGCACAATGCCATG
89080893 TCCTAGATAT
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
24 20 0.35
27 3 0.05
28 34 0.60
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (28 bp):
ACTTAGCACAATGCCATGGACTTATTTC
Found at i:89080873 original size:24 final size:24
Alignment explanation
Indices: 89080805--89080882 Score: 77
Period size: 24 Copynumber: 3.0 Consensus size: 24
89080795 ACTTAGCACA
89080805 ATGCCATTGGCTTATTTCACTTAGCAC
1 ATGCCA-TGGCTTATTTCACTTAG--C
* *
89080832 ATTGCCGTGGACTCATTTCACTTAG-
1 A-TGCCATGG-CTTATTTCACTTAGC
89080857 ATGCCATGGTCTTATTTCACTTAGC
1 ATGCCATGG-CTTATTTCACTTAGC
89080882 A
1 A
89080883 AAATGTCATG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
24 20 0.47
25 2 0.05
27 4 0.09
28 17 0.40
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (24 bp):
ATGCCATGGCTTATTTCACTTAGC
Found at i:89083404 original size:42 final size:43
Alignment explanation
Indices: 89083297--89083416 Score: 127
Period size: 44 Copynumber: 2.8 Consensus size: 43
89083287 TCGTTATGTG
* * *
89083297 ATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGACTTCTG
1 ATTTTGTGTAAGACCATGTCTGGGACATTGGCATCGACTTCTA
* * *
89083340 TTTTATGTGTAACACCATGTCTGGGACATTGGCATC-A-TATTTA
1 ATTT-TGTGTAAGACCATGTCTGGGACATTGGCATCGACT-TCTA
* * *
89083383 ATTTTGTGTAAGACCCTGTCTGGGATAGTGGCAT
1 ATTTTGTGTAAGACCATGTCTGGGACATTGGCAT
89083417 TGATGTTTGA
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 27 0.42
43 9 0.14
44 28 0.44
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (43 bp):
ATTTTGTGTAAGACCATGTCTGGGACATTGGCATCGACTTCTA
Found at i:89084120 original size:23 final size:22
Alignment explanation
Indices: 89084093--89084141 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
89084083 GTATTGATCA
*
89084093 TATGTTTAGGTATGATTTTAGTT
1 TATGTTTAGGTATGAATTTA-TT
*
89084116 TATGTTTTGGTATGAATTTATT
1 TATGTTTAGGTATGAATTTATT
89084138 TATG
1 TATG
89084142 AATTGAGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.57
Consensus pattern (22 bp):
TATGTTTAGGTATGAATTTATT
Found at i:89087804 original size:23 final size:23
Alignment explanation
Indices: 89087755--89087861 Score: 107
Period size: 23 Copynumber: 4.7 Consensus size: 23
89087745 CTGATATTTT
*
89087755 AGCTCG-TATGAGCTTACTG-TTC
1 AGCTCGATA-GAGCTTACCGTTTC
89087777 AGCTCGATAGAGCTTACCGTTTC
1 AGCTCGATAGAGCTTACCGTTTC
*
89087800 AGCTCG-TATGAGCTTACC-ATTC
1 AGCTCGATA-GAGCTTACCGTTTC
* *
89087822 AGCTTGATAGAGCTTATCGTTTC
1 AGCTCGATAGAGCTTACCGTTTC
*
89087845 AACTC-ATTAGAGCTTAC
1 AGCTCGA-TAGAGCTTAC
89087862 TGTTCATCAG
Statistics
Matches: 71, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
22 34 0.48
23 37 0.52
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (23 bp):
AGCTCGATAGAGCTTACCGTTTC
Found at i:89087813 original size:45 final size:45
Alignment explanation
Indices: 89087755--89087867 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 45
89087745 CTGATATTTT
89087755 AGCTCGTATGAGCTTACTGTTCAGCTCGATAGAGCTTACCGTTTC
1 AGCTCGTATGAGCTTACTGTTCAGCTCGATAGAGCTTACCGTTTC
** * *
89087800 AGCTCGTATGAGCTTACCATTCAGCTTGATAGAGCTTATCGTTTC
1 AGCTCGTATGAGCTTACTGTTCAGCTCGATAGAGCTTACCGTTTC
* *
89087845 AACTCAT-TAGAGCTTACTGTTCA
1 AGCTCGTAT-GAGCTTACTGTTCA
89087868 TCAGCTCAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
44 1 0.02
45 58 0.98
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (45 bp):
AGCTCGTATGAGCTTACTGTTCAGCTCGATAGAGCTTACCGTTTC
Found at i:89093368 original size:47 final size:47
Alignment explanation
Indices: 89093295--89093566 Score: 216
Period size: 47 Copynumber: 5.7 Consensus size: 47
89093285 TAAGGTGCCA
*
89093295 ATGCCATGTCCCAGACATGGTTTTACACTGGCTCATATCTCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCG
* *
89093342 ATGCCATGTCCCAGACATGGTCTTACACTGGCT-ATCGTCATCGAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATC-TC-AAGTCG
* * * *
89093391 ACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-AGTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCATATCTCAAGT-C-G
* * * * * * * * *
89093441 ATGCCATGTGCTAGACATGGACTTCCA-TTG-ACACATCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AAGTCG
* * * *
89093487 ATG-CATGTCCCAGACAT-GTTTTACACTAGCTCTTGTCTCAACGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAA-GTCG
*
89093533 ATGCCATGTCCC-GAATATGGTCTTACACTGGCTC
1 ATGCCATGTCCCAG-ACATGGTCTTACACTGGCTC
89093567 TCATAATGTA
Statistics
Matches: 175, Mismatches: 34, Indels: 31
0.73 0.14 0.13
Matches are distributed among these distances:
44 5 0.03
45 15 0.09
46 25 0.14
47 46 0.26
48 19 0.11
49 35 0.20
50 26 0.15
51 3 0.02
52 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCG
Found at i:89101022 original size:47 final size:48
Alignment explanation
Indices: 89100953--89101267 Score: 239
Period size: 47 Copynumber: 6.7 Consensus size: 48
89100943 TAAGGTGCCA
89100953 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAAGTCG
* *
89101000 ATGCCATGTCCCAAACATGGTCTTACACTGACT-ATCATCATCGAAG-CTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATC-TCGAAGTC-G
* * * * *
89101049 ACGCCATGTCCCAGACATGGTCTTACACTAGCTATCACATATC--CGT-G
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC--TCATATCTCGAAGTCG
* * * *
89101096 ATGCCATGTCCCAGACATGGTCTTACACT-GATGC--ATCTCGTAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCT-CATATCTCGAAGTCG
* ** *
89101142 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAAGTCG
* * * * * *
89101188 AT-ACATGTCCCAAACAT-GTCTTACACTAGCAC-TCGTCTC-AACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCGAA-GTCG
*
89101234 ATGCTATGTCCC-GAACATGGTCTTACACTGGCTC
1 ATGCCATGTCCCAG-ACATGGTCTTACACTGGCTC
89101268 TCATAATGTG
Statistics
Matches: 213, Mismatches: 34, Indels: 41
0.74 0.12 0.14
Matches are distributed among these distances:
43 4 0.02
44 11 0.05
45 19 0.09
46 50 0.23
47 74 0.35
48 17 0.08
49 32 0.15
50 2 0.01
51 3 0.01
52 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAAGTCG
Found at i:89101119 original size:96 final size:93
Alignment explanation
Indices: 89100949--89101214 Score: 283
Period size: 96 Copynumber: 2.9 Consensus size: 93
89100939 TGGGTAAGGT
* * * *
89100949 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAA
1 GCCAACGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGTCGATGCCATGTCCCAA
*
89101014 ACATGGTCTTACACTGACTATCATCATCGAA
66 ACATGGTCTTACACTGA-T-GCATC-TCGAA
** *
89101045 GCTGACGCCATGTCCCAGACATGGTCTTACACTAGCTATCACATATC-CGT-GATGCCATGTCCC
1 GCCAACGCCATGTCCCAGACATGGTCTTACACTAGC--TCACATATCAAGTCGATGCCATGTCCC
* *
89101108 AGACATGGTCTTACACTGATGCATCTCGTA
64 AAACATGGTCTTACACTGATGCATCTCGAA
* * * * * * *
89101138 GCCAATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGTCGAT-ACATGTCCCA
1 GCCAACGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC-AAGTCGATGCCATGTCCCA
89101200 AACAT-GTCTTACACT
65 AACATGGTCTTACACT
89101215 AGCACTCGTC
Statistics
Matches: 145, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
89 6 0.04
90 10 0.07
91 27 0.19
92 17 0.12
93 8 0.06
94 4 0.03
95 1 0.01
96 63 0.43
97 2 0.01
98 7 0.05
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (93 bp):
GCCAACGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGTCGATGCCATGTCCCAA
ACATGGTCTTACACTGATGCATCTCGAA
Found at i:89101198 original size:46 final size:45
Alignment explanation
Indices: 89101100--89101266 Score: 133
Period size: 46 Copynumber: 3.6 Consensus size: 45
89101090 TCCGTGATGC
* * * * * *
89101100 CATGTCCCAGACATGGTCTTACACT-GATGCATCTCGTA-GCCAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTCGTCTC-AACGCCGATA
* * *
89101145 CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGTCGATA
1 CATGTCCCAGACATGTCTTACACTGGCTT-CGTCTCAACGCCGATA
* * * *
89101191 CATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAACGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TTCGTCTCAACGCCGATA
89101237 CTATGTCCC-GAACATGGTCTTACACTGGCT
1 C-ATGTCCCAG-ACAT-GTCTTACACTGGCT
89101267 CTCATAATGT
Statistics
Matches: 98, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
44 10 0.10
45 17 0.17
46 47 0.48
47 12 0.12
48 12 0.12
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCGTCTCAACGCCGATA
Found at i:89116412 original size:27 final size:27
Alignment explanation
Indices: 89116351--89116502 Score: 250
Period size: 27 Copynumber: 5.6 Consensus size: 27
89116341 ATATATAGTC
* * *
89116351 CGCACACTCAGTGCTATATATAATCAACT
1 CGCACACTTAGTGC--TACATAGTCAACT
89116380 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
89116407 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
89116434 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
89116461 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
89116488 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
89116503 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
27 106 0.89
29 13 0.11
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:89118725 original size:51 final size:51
Alignment explanation
Indices: 89118649--89118761 Score: 163
Period size: 51 Copynumber: 2.2 Consensus size: 51
89118639 CTACCTTGTA
* * * *
89118649 ACATGTAACACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGTT
1 ACATGTATCACATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGCT
* *
89118700 ACATGTATCGCATCCATTATGAACTCGGACCACTCAACGAGCTCAGATGCT
1 ACATGTATCACATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGCT
*
89118751 ACATATATCAC
1 ACATGTATCAC
89118762 GACCTCAGAC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (51 bp):
ACATGTATCACATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGCT
Found at i:89121824 original size:15 final size:16
Alignment explanation
Indices: 89121803--89121847 Score: 76
Period size: 15 Copynumber: 2.9 Consensus size: 16
89121793 GACCAAAATA
89121803 AAGAAATCCAAGATAG
1 AAGAAATCCAAGATAG
89121819 AA-AAATCCAAGAT-G
1 AAGAAATCCAAGATAG
89121833 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
89121848 CGATACCGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.11
15 22 0.81
16 2 0.07
ACGTcount: A:0.58, C:0.13, G:0.16, T:0.13
Consensus pattern (16 bp):
AAGAAATCCAAGATAG
Found at i:89127542 original size:29 final size:29
Alignment explanation
Indices: 89127512--89127635 Score: 169
Period size: 29 Copynumber: 4.3 Consensus size: 29
89127502 AAAGCATGTG
*
89127512 TATGAATGTGATTTGGGCCTAATGGGCTG
1 TATGAATGTGATTTGGGCCTAATGGGCTA
*
89127541 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCTA
* * *
89127570 TACGAATATGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCTA
* *
89127599 TATGAATGAGA-TTGGGCCTAGTGGGCTA
1 TATGAATGTGATTTGGGCCTAATGGGCTA
*
89127627 TATGCATGT
1 TATGAATGT
89127636 ATGTAGACTT
Statistics
Matches: 84, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 22 0.26
29 62 0.74
ACGTcount: A:0.24, C:0.13, G:0.31, T:0.31
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCTA
Found at i:89135435 original size:23 final size:23
Alignment explanation
Indices: 89135374--89135461 Score: 110
Period size: 23 Copynumber: 3.8 Consensus size: 23
89135364 TACCAATATA
*
89135374 TCAGCTCG-TAAGAGCTTACTATTT
1 TCAGCTCGAT-AGAGCTTACT-GTT
*
89135398 TTAGCTCGATAGAGCTTACTGTT
1 TCAGCTCGATAGAGCTTACTGTT
89135421 TCAGCTCG-TATGAGCTTACTG-T
1 TCAGCTCGATA-GAGCTTACTGTT
89135443 TCAGCTCGATAGAGCTTAC
1 TCAGCTCGATAGAGCTTAC
89135462 CATTTCAGGT
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
22 19 0.33
23 21 0.36
24 17 0.29
25 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (23 bp):
TCAGCTCGATAGAGCTTACTGTT
Found at i:89135448 original size:22 final size:22
Alignment explanation
Indices: 89135374--89135461 Score: 99
Period size: 22 Copynumber: 3.9 Consensus size: 22
89135364 TACCAATATA
*
89135374 TCAGCTCG-TAAGAGCTTACTATTT
1 TCAGCTCGAT-AGAGCTTAC--TGT
*
89135398 TTAGCTCGATAGAGCTTACTGTT
1 TCAGCTCGATAGAGCTTACTG-T
89135421 TCAGCTCG-TATGAGCTTACTGT
1 TCAGCTCGATA-GAGCTTACTGT
89135443 TCAGCTCGATAGAGCTTAC
1 TCAGCTCGATAGAGCTTAC
89135462 CATTTCAGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
22 20 0.35
23 20 0.35
24 16 0.28
25 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (22 bp):
TCAGCTCGATAGAGCTTACTGT
Found at i:89135468 original size:45 final size:46
Alignment explanation
Indices: 89135359--89135469 Score: 134
Period size: 45 Copynumber: 2.3 Consensus size: 46
89135349 GACTCAGTAT
* *
89135359 GAGCTTACCAATATATCAGCTCGTAAGAGCTTACTATTTTTAGCTCGATA
1 GAGCTTACC-AT-T-TCAGCTCGTAAGAGCTTAC-ATGTTCAGCTCGATA
** *
89135409 GAGCTTACTGTTTCAGCTCGTATGAGCTTAC-TGTTCAGCTCGATA
1 GAGCTTACCATTTCAGCTCGTAAGAGCTTACATGTTCAGCTCGATA
89135454 GAGCTTACCATTTCAG
1 GAGCTTACCATTTCAG
89135470 GTCATTGGAG
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
45 26 0.48
47 18 0.33
48 1 0.02
49 1 0.02
50 8 0.15
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (46 bp):
GAGCTTACCATTTCAGCTCGTAAGAGCTTACATGTTCAGCTCGATA
Found at i:89135485 original size:45 final size:45
Alignment explanation
Indices: 89135359--89135490 Score: 122
Period size: 45 Copynumber: 2.8 Consensus size: 45
89135349 GACTCAGTAT
* * * *
89135359 GAGCTTACCAATATATCAGCTCGTAAGAGCTTACTATTTTTAGCTCGATA
1 GAGCTTACC-AT-T-TCAGCTCATATGAGCTTAC--TGTTCAGCTCGATA
** *
89135409 GAGCTTACTGTTTCAGCTCGTATGAGCTTACTGTTCAGCTCGATA
1 GAGCTTACCATTTCAGCTCATATGAGCTTACTGTTCAGCTCGATA
* *
89135454 GAGCTTACCATTTCAGGTCAT-TGGAGTTTACTGTTCA
1 GAGCTTACCATTTCAGCTCATAT-GAGCTTACTGTTCA
89135491 TCAACTCAGG
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
44 1 0.01
45 42 0.59
47 18 0.25
48 1 0.01
49 1 0.01
50 8 0.11
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (45 bp):
GAGCTTACCATTTCAGCTCATATGAGCTTACTGTTCAGCTCGATA
Found at i:89138497 original size:27 final size:26
Alignment explanation
Indices: 89138441--89138497 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
89138431 CAACCTTAAC
* * *
89138441 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
89138467 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
89138494 CCTA
1 CCTA
89138498 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:89154737 original size:47 final size:47
Alignment explanation
Indices: 89154625--89154921 Score: 288
Period size: 47 Copynumber: 6.7 Consensus size: 47
89154615 ATTATACGTG
* * * * *
89154625 TAACGTGGTGCTAAGTCGATATACCATGATTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
89154672 GTAACGTGGTGCTAAGTGGATCTGCCACGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
89154720 TAACATGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* * *
89154758 TAATGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* * *
89154805 TAACGTCGTGCTAAGTGGTTATACCACGGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* * *
89154843 TAACGTGGTGCTAAGTGGATATGCTACGATTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
*
89154890 TAACGTGGTGCTAAGTGGATATACCATGGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
89154922 AACATGTAAC
Statistics
Matches: 199, Mismatches: 32, Indels: 37
0.74 0.12 0.14
Matches are distributed among these distances:
38 55 0.28
39 2 0.01
40 4 0.02
41 4 0.02
44 4 0.02
45 4 0.02
46 2 0.01
47 84 0.42
48 40 0.20
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
Found at i:89154776 original size:38 final size:38
Alignment explanation
Indices: 89154720--89154966 Score: 197
Period size: 38 Copynumber: 6.0 Consensus size: 38
89154710 ATTGATTCAT
*
89154720 TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * * *
89154758 TAATGTGGTGCTAAGTGGATATGCCATGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
* *
89154799 ATTCATTAACGTCGTGCTAAGTGGTTATACCACGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * * *
89154843 TAACGTGGTGCTAAGTGGATATGCTACGATTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
*
89154884 ATTCATTAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
89154928 TAACGTGGTGCTAAGTGGATATTCCATGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
89154966 T
1 T
89154967 TAATTTGAAA
Statistics
Matches: 167, Mismatches: 24, Indels: 36
0.74 0.11 0.16
Matches are distributed among these distances:
38 92 0.55
39 2 0.01
40 4 0.02
41 4 0.02
44 4 0.02
45 4 0.02
46 2 0.01
47 55 0.33
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.33
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:89154777 original size:85 final size:85
Alignment explanation
Indices: 89154668--89154959 Score: 485
Period size: 85 Copynumber: 3.4 Consensus size: 85
89154658 ACATATTGAT
* *
89154668 ACATGTAACGTGGTGCTAAGTGGATCTGCCACGGTTACATATATTGATTCATTAACATGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
89154733 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
* * *
89154753 ACATGTAATGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATTAACGTCGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
*
89154818 AGTGGTTATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
* *
89154838 ACATGTAACGTGGTGCTAAGTGGATATGCTACGATTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
*
89154903 AGTGGATATACCATGGTTAA
66 AGTGGATATACCACGGTTAA
* *
89154923 ACATGTAACGTGGTGCTAAGTGGATATTCCATGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
89154960 TACATGTTAA
Statistics
Matches: 190, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 190 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:89162110 original size:41 final size:41
Alignment explanation
Indices: 89162053--89162147 Score: 131
Period size: 41 Copynumber: 2.3 Consensus size: 41
89162043 ACATAAAATT
* * *
89162053 TGCTAGGC-ATAAAGCCTAGA-ATAATACACCGGCATAGAGCC
1 TGCTAGGCAAT-AAGCCT-GATATAATACACCGACACAAAGCC
89162094 TGCTAGGCAATAAGCCTGATATAATACACCGACACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGACACAAAGCC
89162135 TGCTAGGCAATAA
1 TGCTAGGCAATAA
89162148 AGCCCGAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 2 0.04
41 45 0.92
42 2 0.04
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGACACAAAGCC
Found at i:89171837 original size:45 final size:45
Alignment explanation
Indices: 89171787--89171879 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
89171777 AAAAGATGTT
*
89171787 CATCACACACCAAACTTTCATAATCTACCATGAAACATCAAAATA
1 CATCACACACAAAACTTTCATAATCTACCATGAAACATCAAAATA
*
89171832 CATCACACATAAAACTTTCATAATCTACCATGAAACATCAAAATA
1 CATCACACACAAAACTTTCATAATCTACCATGAAACATCAAAATA
89171877 CAT
1 CAT
89171880 GCACGTCACA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (45 bp):
CATCACACACAAAACTTTCATAATCTACCATGAAACATCAAAATA
Found at i:89171867 original size:21 final size:21
Alignment explanation
Indices: 89171798--89171867 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
89171788 ATCACACACC
89171798 AAACTTTCATAATCTACCATG
1 AAACTTTCATAATCTACCATG
* * *
89171819 AAAC-ATCAAAATACATCACACATA
1 AAACTTTCATAAT-C-T-AC-CATG
89171843 AAACTTTCATAATCTACCATG
1 AAACTTTCATAATCTACCATG
89171864 AAAC
1 AAAC
89171868 ATCAAAATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 6 0.16
21 12 0.32
22 3 0.08
23 3 0.08
24 8 0.21
25 6 0.16
ACGTcount: A:0.47, C:0.24, G:0.03, T:0.26
Consensus pattern (21 bp):
AAACTTTCATAATCTACCATG
Found at i:89176140 original size:25 final size:25
Alignment explanation
Indices: 89176111--89176158 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
89176101 TTATAATATG
* *
89176111 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCGTTATACCCCTAGGTA
89176136 AAAATGACCGTTATACCCCTAGG
1 AAAATGACCGTTATACCCCTAGG
89176159 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (25 bp):
AAAATGACCGTTATACCCCTAGGTA
Found at i:89176209 original size:9 final size:9
Alignment explanation
Indices: 89176197--89176253 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
89176187 TTTGATAAAC
89176197 ATGATATGT
1 ATGATATGT
*
89176206 ATGATATGCAC
1 ATGATATG--T
*
89176217 ATGACATGT
1 ATGATATGT
*
89176226 ATGATATGCAC
1 ATGATATG--T
89176237 ATGATATGT
1 ATGATATGT
89176246 ATGATATG
1 ATGATATG
89176254 CACACGTGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:89176220 original size:20 final size:20
Alignment explanation
Indices: 89176195--89176257 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
89176185 ATTTTGATAA
89176195 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
89176215 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
89176235 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
89176255 ACA
1 ACA
89176258 CGTGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:89176367 original size:23 final size:23
Alignment explanation
Indices: 89176312--89176431 Score: 195
Period size: 23 Copynumber: 5.1 Consensus size: 23
89176302 AGGAAGTGCA
89176312 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
89176335 AGAAGGGCTTATGCCCCAGTTATT
1 A-AAGGGCTTATGCCCCAGTTATT
*
89176359 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
89176382 AAAAGGGCTTATGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
* *
89176406 AAAGGGTTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
89176429 AAA
1 AAA
89176432 AAAGGCTAGG
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
23 46 0.51
24 45 0.49
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:89176381 original size:47 final size:47
Alignment explanation
Indices: 89176312--89176432 Score: 215
Period size: 47 Copynumber: 2.6 Consensus size: 47
89176302 AGGAAGTGCA
* *
89176312 AAAGGGCTTATGCCCCAGTTATTAGAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTATGCCCCAGTTATT
89176359 AAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTATGCCCCAGTTATT
*
89176406 AAAGGGTTTATGCCCTAGTTATTAAAA
1 AAAGGGCTTATGCCCTAGTTATTAAAA
89176433 AAGGCTAGGC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (47 bp):
AAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:89184237 original size:25 final size:25
Alignment explanation
Indices: 89184208--89184255 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
89184198 TTATAATATG
* *
89184208 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
89184233 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
89184256 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:89184306 original size:9 final size:9
Alignment explanation
Indices: 89184294--89184350 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
89184284 TTTGATAAAC
89184294 ATGATATGT
1 ATGATATGT
*
89184303 ATGATATGCAC
1 ATGATATG--T
*
89184314 ATGACATGT
1 ATGATATGT
*
89184323 ATGATATGCAC
1 ATGATATG--T
89184334 ATGATATGT
1 ATGATATGT
89184343 ATGATATG
1 ATGATATG
89184351 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:89184317 original size:20 final size:20
Alignment explanation
Indices: 89184292--89184354 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
89184282 ATTTTGATAA
89184292 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
89184312 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
89184332 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
89184352 ACA
1 ACA
89184355 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:89184437 original size:24 final size:24
Alignment explanation
Indices: 89184408--89184574 Score: 216
Period size: 24 Copynumber: 7.0 Consensus size: 24
89184398 GAGGAAGTGC
89184408 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
89184432 AGAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
89184456 -AAAGGGCTTATGCCTCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
89184479 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
89184503 -AAAGGGCTTATGCCCCAGTTATAAA
1 AAAAGGGCTTATGCCCCAGTTAT--T
89184528 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
89184551 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
89184575 ATGATAAAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
23 47 0.38
24 49 0.39
25 20 0.16
26 9 0.07
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:89184478 original size:47 final size:47
Alignment explanation
Indices: 89184409--89184553 Score: 220
Period size: 47 Copynumber: 3.1 Consensus size: 47
89184399 AGGAAGTGCA
*
89184409 AAAGGGCTTATGCCCCAGTTATTAGAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
* * *
89184456 AAAGGGCTTATGCCTCAATTATTAAAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
*
89184503 AAAGGGCTTATGCCCCAGTTATAAAAAAAGGGCTT-TGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT--TAAAAGGGCTTATGCCCCAGTTATT
89184551 AAA
1 AAA
89184554 AGAGGCTAGG
Statistics
Matches: 88, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
47 63 0.72
48 15 0.17
49 10 0.11
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:89184805 original size:31 final size:31
Alignment explanation
Indices: 89184770--89184830 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
89184760 TGACAGTAAT
89184770 GGCTTCGGCCCAGTAATATGAAATATGAAAA
1 GGCTTCGGCCCAGTAATATGAAATATGAAAA
** *
89184801 GGCTTCGGCCCAGTGTTATGAACTATGAAA
1 GGCTTCGGCCCAGTAATATGAAATATGAAA
89184831 TATGAAAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (31 bp):
GGCTTCGGCCCAGTAATATGAAATATGAAAA
Found at i:89185605 original size:18 final size:15
Alignment explanation
Indices: 89185568--89185598 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
89185558 TGATAGAGTA
89185568 TAGAAAAAAAGAAGG
1 TAGAAAAAAAGAAGG
89185583 TAGAAAAAAAGAAGG
1 TAGAAAAAAAGAAGG
89185598 T
1 T
89185599 GAGAGAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.10
Consensus pattern (15 bp):
TAGAAAAAAAGAAGG
Found at i:89187868 original size:20 final size:20
Alignment explanation
Indices: 89187843--89187909 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
89187833 ATTCTGATAT
*
89187843 ACATGATATGTATGATATGG
1 ACATGATATGTATGATATGC
89187863 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
89187883 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
89187903 ACATGAT
1 ACATGAT
89187910 GTATTCATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:89187897 original size:9 final size:9
Alignment explanation
Indices: 89187845--89187901 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
89187835 TCTGATATAC
89187845 ATGATATGT
1 ATGATATGT
*
89187854 ATGATATGGAC
1 ATGATAT-G-T
89187865 ATGATATGT
1 ATGATATGT
*
89187874 ATGATATGCAC
1 ATGATATG--T
89187885 ATGATATGT
1 ATGATATGT
89187894 ATGATATG
1 ATGATATG
89187902 CACATGATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 23 0.57
10 2 0.05
11 15 0.38
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (9 bp):
ATGATATGT
Found at i:89187923 original size:40 final size:39
Alignment explanation
Indices: 89187843--89187923 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 39
89187833 ATTCTGATAT
* *
89187843 ACATGATATGTATGATATGGACATGATATGTATGATATGC
1 ACATGATATGTATGATATGCACATGA-ATGTATCATATGC
89187883 ACATGATATGTATGATATGCACATG-ATGTATTCATAATGC
1 ACATGATATGTATGATATGCACATGAATGTA-TCAT-ATGC
89187923 A
1 A
89187924 TTGGGATGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 5 0.14
39 3 0.08
40 29 0.78
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.35
Consensus pattern (39 bp):
ACATGATATGTATGATATGCACATGAATGTATCATATGC
Done.